rs38539721 SNP Detail

Summary

• ID
  rs38539721
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:121933122 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        ACACCTAATT ATAGCATTAT CATGAGAATT CAAAAAAATA
  ATGTGGTCAT GAACTATGTA GGACTAGAGG CAGCTCAAAT GATGGCAATC CTAACCTAAC
  Y
  GTGGCTGAGC CAGGATGCAG GTTGCCTCTC AGCTGTGTGA AAGTTAACAT GGGTGGCTAT
  GAAGTTCTTT TCTGTTGTCC TGAGCCCCAC AGGTCTCCA                       
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss51021578	NES13907222	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	T	C	C	T	C	C		T	C	C	T		C
ss320908752	CHEV_3_121842391	CHEVERUD	SCREENING_POP	f	SNP											C					T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs38539721					SNP	C	C	C	C	T	C	C	T	C	C	C	T	C	C	T	T	C

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss51021578	NES13907222	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:121933122 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Abca4	ATP-binding cassette, sub-family A member 4			Intron
				Noncoding-Transcript-Variant
Gm43158	predicted gene 43158			within coordinates
Rr584243	regulatory region 584243			1288 bp proximal
Rr584244	regulatory region 584244			1546 bp proximal